Sequence
atgc intronic sequence ATGC exonic sequence...ttggcttgattgaaaaccttgacactctaatatgtctatactttatgagaatttatttgtcacattcttgcatcaacaattccatgctcttttcttgtagAGCAATGGGAGATGTCTCAGATCGTATAGGTCGTCCTACAGACAATGGACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 4
-ttggcttgattgaaaaccttgacactctaatatgtctatactttatgagaatttatttgtcacattcttgcatcaacaattccatgctcttttct---tgtagAGCAATGGGAGATGTCTCAGATCGTATAGGTCGTCCTACAGACAATGGACAG
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gtctgttt-atagaagaaaataatattgctactctctgataaatttcaataact-attagtcttttaactg-ataaatgataa-gtactatttgcaatatgtagAGCGATGGGAGATGTTTCTGATCGCATTGGTCGCCCTACGGACAATGGACAG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 4
-ttggcttgattgaaaaccttgacactctaatatgtctatactttatgagaatttatttgtcacattcttgc--atcaacaattccatgctcttttcttgtagAGCAATGGGAGATGTCTCAGATCGTATAGGTCGTCCTACAGACAATGGACAG
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gttgttgctcactgtaacttaaatttgtcaatatacatatggct---gtcatttcctttaccgctattccgctaattgtaaatatcgtttgaacattttgtagGGCAATGGGGGATGTTTCTGATCGTATAGGCCGACCGACAGACAATGGTCAG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 4
ttggcttgattgaaaaccttgacactctaatat-gtctatactttatgaga-atttatttgtcacattcttgcatcaacaattccatgctct--tttcttgtagAGCAATGGGAGATGTCTCAGATCGTATAGGTCGTCCTACAGACAATGGACAG
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----cgtaattgttgcatcttactggttattattggaagcaatatatcagatgaccattttctactttacagctgattctgtatgatgttttgacttttttcagAGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S458_4V6.1 (Physcomitrella patens), 3'ss of exon 4
-------------------------------------------------------------------------------------------ttggcttgattga--aaaccttgacactctaat-atgtctatactttatgag-aatttatttgtcacattcttgcatc--aac--aattccatgctcttttcttgtagAGCAATGGGAGATGTCTCAGATCGTATAGGTCGTCCTACAGACAATGGACAG
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gtaaaaatatggaccttcgtgatactgttcaatacttcagtaggtctaggtatttgggtgttggatcctacaaaacatgtctcaacttctcctctcataactcttcaatcccttctactcttcttgtgttggaagttttctagtggtagattaatcacaagattgaatcccaatcaaatggtataatggattcctgcagAGCGATGGGAGATGTTTCTGATCGAATTGGTCGACCTACAGATAATGGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagaatttatttgtcacattcttgcatcaacaattccatgctcttttcttgtagAGCAATGGGAGATGTCTCAGATCGTATAGGTCGTCCTACAGACAATGGACAG
ttccatgctcttttct CT-rich tract
atttatttgt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggcttgattgaaaaccttgacactctaatatgtctatactttatgagaatttatttgtcacattcttgcatcaacaattccatgctcttttcttgtagAGCAATGGGAGATGTCTCAGATCGTATAGGTCGTCCTACAGACAATGGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
-tggcttg
- - - - - -gaaaacc
- - - - - - - - - ttgacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgct